I have performed Spearman correlation for my data. Then I tried to cluster and plot my data using the "ward.D2" method for corrplot()and pheatmap(). However, the order of the variables is different between the two plots.
Could someone help me clarify this point, thus correcting my code and creating the two plots with the same order of clustered variables? Thank you so much.
#A sample of my dataset:
dput(Data_corr)
structure(list(S_cHDLP = c(0.299999999999999, -2.78, 0.880000000000001,
2.48, 2.15, 5.31, 3.02, 1.19, 2.1, -1.18, -0.34, 1.25, -3.25,
-3.16, 0.19, -0.100000000000001, -2.16, -0.220000000000001, 0.77,
-2.12), H7P = c(-0.18, -0.48, -0.13, -0.21, 0.07, 0.64, -0.13,
-0.1, 0.12, -0.22, 0.09, -0.0399999999999999, -1.56, 0.39, 0.58,
-0.49, 0.2, 0.13, 0.11, 0.06), H6P = c(0, 0, 0, 0.16, -0.23,
0, 0, 0, -0.26, -0.28, 0.06, -0.17, 1.16, -0.12, -0.32, -0.17,
0.38, 0.05, 0.01, 0), H5P = c(0, 0.84, 0.47, 1.21, 0.01, 0.21,
1.36, 0.2, -0.12, 0.93, -1.01, 0, -0.58, -0.97, -1, 0.97, -0.89,
0.35, -0.59, -0.12), H4P = c(-0.12, -1.27, -0.18, 0.25, 1.02,
1.26, -0.62, -0.16, 0.25, -0.01, 0.44, 0.17, 0.19, 0.97, 2.35,
0.3, -0.18, 0.03, 0.0899999999999999, 0.38), H3P = c(-0.31, 0.39,
0.13, 0.29, 0, 0.02, -0.07, 0, 0, -0.32, 0, -0.79, 0, -0.53,
-0.71, -0.2, 2.08, 0.86, 0, 0), H2P = c(-1.28, -0.619999999999999,
-1.07, 1.96, 0.15, 4.92, 1.55, 3, -0.459999999999999, -0.56,
1.12, 3.44, -1.48, -1.27, 1.45, 0.609999999999999, -1.59, -1.57,
2.04, 2.03), H1P = c(1.58, -2.15, 1.96, 0.51, 2, 0.37, 1.47,
-1.83, 2.56, -0.62, -1.46, -2.19, -1.77, -1.9, -1.25, -0.73,
-0.57, 1.35, -1.28, -4.14), TRLZ_TRL = c(4.61, 1.49, -2.71, 1.54,
-5.46, 2.18, 3.48, 12.83, 7.51, 7.74, -8.38, -0.729999999999997,
6.11, -19.74, -0.869999999999997, -1.82, -1.57000000000001, 0.609999999999999,
-14.79, -18.65), LDLZ = c(-0.0599999999999987, -0.400000000000002,
-0.289999999999999, -1.2, -0.479999999999997, -0.59, -1.29, -0.0599999999999987,
0.210000000000001, -1.58, 1.97, 0.0800000000000018, -1, 1.95,
1.41, 0.00999999999999801, 0.430000000000003, -0.289999999999999,
0.68, 0.52), HDLZ = c(-0.200000000000001, -0.200000000000001,
-0.0700000000000003, 0, -0.0200000000000014, -0.0199999999999996,
-0.0399999999999991, -0.119999999999999, -0.0900000000000016,
-0.0500000000000007, -0.15, -0.16, -0.640000000000001, 0.42,
0.16, -0.130000000000001, 0.15, 0.41, -0.0300000000000011, 0.18
)), class = "data.frame", row.names = c(NA, -20L))
library(pheatmap)
library(corrplot)
CorMethod <- "spearman"
CorMatrix <- cor(Data_corr, method=CorMethod, use="pairwise.complete.obs")
## 1st Plot
Plot3<-pheatmap(CorMatrix, cluster_cols=T, cluster_rows=T, cutree_rows = 3, angle_col=45, fontsize_col=5, fontsize_row = 7, treeheight_col=0, clustering_method="ward.D2")
#2nd Plot
Plot8 <-corrplot(CorMatrix, method="square", type="lower", order="hclust", hclust.method="ward.D2", tl.pos="ld", tl.cex = 0.5, tl.col="black", tl.srt=45)
